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SHMT2 (serine hydroxymethyltransferase 2)

Gene

6472

Serine hydroxymethyltransferase 2

SHMT2

GLYA, HEL-S-51e, NEDCASB, SHMT, mSHMT

12q13.3

This gene encodes the mitochondrial form of a pyridoxal phosphate-dependent enzyme that catalyzes the reversible reaction of serine and tetrahydrofolate to glycine and 5,10-methylene tetrahydrofolate. The encoded product is primarily responsible for glyci

Show/Hide all(235)

miRTarBase ID	miRNA	Experiments	Reference
MIRT006985	hsa-miR-193b-3p	Luciferase reporter assay	21512034
MIRT006985	hsa-miR-193b-3p	Luciferase reporter assay	21512034
MIRT006985	hsa-miR-193b-3p	Reporter assay;Proteomics	21512034
MIRT006985	hsa-miR-193b-3p	Microarray	20304954
MIRT022109	hsa-miR-125b-5p	Other	20194440
MIRT022849	hsa-miR-124-3p	Proteomics;Microarray	18668037
MIRT052431	hsa-let-7a-5p	CLASH	23622248
MIRT049169	hsa-miR-92a-3p	CLASH	23622248
MIRT045122	hsa-miR-186-5p	CLASH	23622248
MIRT042617	hsa-miR-423-3p	CLASH	23622248
MIRT006985	hsa-miR-193b-3p	CLASH	23622248
MIRT040137	hsa-miR-615-3p	CLASH	23622248
MIRT036608	hsa-miR-940	CLASH	23622248
MIRT338626	hsa-miR-4428	PAR-CLIP	23592263
MIRT338629	hsa-miR-4716-3p	PAR-CLIP	23592263
MIRT338636	hsa-miR-6794-5p	PAR-CLIP	23592263
MIRT458226	hsa-miR-6805-5p	PAR-CLIP	23592263
MIRT458225	hsa-miR-6732-5p	PAR-CLIP	23592263
MIRT338631	hsa-miR-4726-3p	PAR-CLIP	23592263
MIRT458224	hsa-miR-7114-5p	PAR-CLIP	23592263
MIRT458223	hsa-miR-134-3p	PAR-CLIP	23592263
MIRT458222	hsa-miR-924	PAR-CLIP	23592263
MIRT338627	hsa-miR-4533	PAR-CLIP	23592263
MIRT338633	hsa-miR-5192	PAR-CLIP	23592263
MIRT458221	hsa-miR-3136-3p	PAR-CLIP	23592263
MIRT458220	hsa-miR-7155-3p	PAR-CLIP	23592263
MIRT338632	hsa-miR-4747-5p	PAR-CLIP	23592263
MIRT338634	hsa-miR-5196-5p	PAR-CLIP	23592263
MIRT458219	hsa-miR-2861	PAR-CLIP	23592263
MIRT338624	hsa-miR-4271	PAR-CLIP	23592263
MIRT338630	hsa-miR-4725-3p	PAR-CLIP	23592263
MIRT338637	hsa-miR-6780b-5p	PAR-CLIP	23592263
MIRT338620	hsa-miR-625-5p	PAR-CLIP	23592263
MIRT458218	hsa-miR-4417	PAR-CLIP	23592263
MIRT338625	hsa-miR-4278	PAR-CLIP	23592263
MIRT458217	hsa-miR-937-5p	PAR-CLIP	23592263
MIRT458216	hsa-miR-627-5p	PAR-CLIP	23592263
MIRT458214	hsa-miR-4265	PAR-CLIP	23592263
MIRT458215	hsa-miR-4296	PAR-CLIP	23592263
MIRT458213	hsa-miR-4322	PAR-CLIP	23592263
MIRT458212	hsa-miR-8081	PAR-CLIP	23592263
MIRT338626	hsa-miR-4428	PAR-CLIP	23592263
MIRT338629	hsa-miR-4716-3p	PAR-CLIP	23592263
MIRT338636	hsa-miR-6794-5p	PAR-CLIP	23592263
MIRT458226	hsa-miR-6805-5p	PAR-CLIP	23592263
MIRT458225	hsa-miR-6732-5p	PAR-CLIP	23592263
MIRT338631	hsa-miR-4726-3p	PAR-CLIP	23592263
MIRT458224	hsa-miR-7114-5p	PAR-CLIP	23592263
MIRT458223	hsa-miR-134-3p	PAR-CLIP	23592263
MIRT458222	hsa-miR-924	PAR-CLIP	23592263
MIRT338627	hsa-miR-4533	PAR-CLIP	23592263
MIRT338633	hsa-miR-5192	PAR-CLIP	23592263
MIRT458221	hsa-miR-3136-3p	PAR-CLIP	23592263
MIRT458220	hsa-miR-7155-3p	PAR-CLIP	23592263
MIRT338632	hsa-miR-4747-5p	PAR-CLIP	23592263
MIRT338634	hsa-miR-5196-5p	PAR-CLIP	23592263
MIRT458219	hsa-miR-2861	PAR-CLIP	23592263
MIRT338624	hsa-miR-4271	PAR-CLIP	23592263
MIRT338630	hsa-miR-4725-3p	PAR-CLIP	23592263
MIRT338637	hsa-miR-6780b-5p	PAR-CLIP	23592263
MIRT338620	hsa-miR-625-5p	PAR-CLIP	23592263
MIRT458218	hsa-miR-4417	PAR-CLIP	23592263
MIRT338625	hsa-miR-4278	PAR-CLIP	23592263
MIRT458217	hsa-miR-937-5p	PAR-CLIP	23592263
MIRT458216	hsa-miR-627-5p	PAR-CLIP	23592263
MIRT458214	hsa-miR-4265	PAR-CLIP	23592263
MIRT458215	hsa-miR-4296	PAR-CLIP	23592263
MIRT458213	hsa-miR-4322	PAR-CLIP	23592263
MIRT458212	hsa-miR-8081	PAR-CLIP	23592263
MIRT755599	hsa-miR-383-5p	Luciferase reporter assay, Western blotting, qRT-PCR, Immunohistochemistry (IHC)	38577602
MIRT1347438	hsa-miR-4300	CLIP-seq
MIRT1347439	hsa-miR-4321	CLIP-seq
MIRT1347440	hsa-miR-4536	CLIP-seq
MIRT1347441	hsa-miR-541	CLIP-seq
MIRT1347442	hsa-miR-654-5p	CLIP-seq
MIRT1347443	hsa-miR-920	CLIP-seq
MIRT1347444	hsa-miR-1470	CLIP-seq
MIRT1347445	hsa-miR-3126-5p	CLIP-seq
MIRT1347446	hsa-miR-3173-3p	CLIP-seq
MIRT1347447	hsa-miR-34b	CLIP-seq
MIRT1347448	hsa-miR-3688-3p	CLIP-seq
MIRT1347449	hsa-miR-4261	CLIP-seq
MIRT1347450	hsa-miR-4419a	CLIP-seq
MIRT1347451	hsa-miR-4476	CLIP-seq
MIRT1347452	hsa-miR-4510	CLIP-seq
MIRT1347453	hsa-miR-4643	CLIP-seq
MIRT1347454	hsa-miR-466	CLIP-seq
MIRT1347455	hsa-miR-4667-3p	CLIP-seq
MIRT1347456	hsa-miR-4779	CLIP-seq
MIRT1347457	hsa-miR-4789-3p	CLIP-seq
MIRT1347458	hsa-miR-510	CLIP-seq
MIRT1347459	hsa-miR-548ac	CLIP-seq
MIRT1347460	hsa-miR-548ae	CLIP-seq
MIRT1347461	hsa-miR-548aj	CLIP-seq
MIRT1347462	hsa-miR-548am	CLIP-seq
MIRT1347463	hsa-miR-548d-3p	CLIP-seq
MIRT1347464	hsa-miR-548x	CLIP-seq
MIRT1347465	hsa-miR-548z	CLIP-seq
MIRT1347466	hsa-miR-642a	CLIP-seq
MIRT2102869	hsa-miR-106a	CLIP-seq
MIRT2102870	hsa-miR-106b	CLIP-seq
MIRT2102871	hsa-miR-1237	CLIP-seq
MIRT2102872	hsa-miR-1248	CLIP-seq
MIRT2102873	hsa-miR-1254	CLIP-seq
MIRT2102874	hsa-miR-1264	CLIP-seq
MIRT2102875	hsa-miR-17	CLIP-seq
MIRT2102876	hsa-miR-20a	CLIP-seq
MIRT2102877	hsa-miR-20b	CLIP-seq
MIRT2102878	hsa-miR-296-5p	CLIP-seq
MIRT2102879	hsa-miR-3116	CLIP-seq
MIRT2102880	hsa-miR-3613-3p	CLIP-seq
MIRT2102881	hsa-miR-4263	CLIP-seq
MIRT2102882	hsa-miR-4290	CLIP-seq
MIRT1347455	hsa-miR-4667-3p	CLIP-seq
MIRT2102883	hsa-miR-515-3p	CLIP-seq
MIRT2102884	hsa-miR-519d	CLIP-seq
MIRT2102885	hsa-miR-519e	CLIP-seq
MIRT2102886	hsa-miR-550a	CLIP-seq
MIRT2102887	hsa-miR-625	CLIP-seq
MIRT2102888	hsa-miR-627	CLIP-seq
MIRT2102889	hsa-miR-661	CLIP-seq
MIRT2102890	hsa-miR-760	CLIP-seq
MIRT2102891	hsa-miR-93	CLIP-seq
MIRT2102869	hsa-miR-106a	CLIP-seq
MIRT2102870	hsa-miR-106b	CLIP-seq
MIRT2102871	hsa-miR-1237	CLIP-seq
MIRT2102872	hsa-miR-1248	CLIP-seq
MIRT2102873	hsa-miR-1254	CLIP-seq
MIRT2102874	hsa-miR-1264	CLIP-seq
MIRT2102875	hsa-miR-17	CLIP-seq
MIRT2102876	hsa-miR-20a	CLIP-seq
MIRT2102877	hsa-miR-20b	CLIP-seq
MIRT2102878	hsa-miR-296-5p	CLIP-seq
MIRT2102879	hsa-miR-3116	CLIP-seq
MIRT2327224	hsa-miR-3117-5p	CLIP-seq
MIRT2102881	hsa-miR-4263	CLIP-seq
MIRT2102882	hsa-miR-4290	CLIP-seq
MIRT1347455	hsa-miR-4667-3p	CLIP-seq
MIRT2327225	hsa-miR-4679	CLIP-seq
MIRT2102883	hsa-miR-515-3p	CLIP-seq
MIRT2102884	hsa-miR-519d	CLIP-seq
MIRT2102885	hsa-miR-519e	CLIP-seq
MIRT2102886	hsa-miR-550a	CLIP-seq
MIRT2102889	hsa-miR-661	CLIP-seq
MIRT2102891	hsa-miR-93	CLIP-seq
MIRT2327224	hsa-miR-3117-5p	CLIP-seq
MIRT2327225	hsa-miR-4679	CLIP-seq
MIRT2102869	hsa-miR-106a	CLIP-seq
MIRT2102870	hsa-miR-106b	CLIP-seq
MIRT2102871	hsa-miR-1237	CLIP-seq
MIRT2102872	hsa-miR-1248	CLIP-seq
MIRT2102873	hsa-miR-1254	CLIP-seq
MIRT2102874	hsa-miR-1264	CLIP-seq
MIRT2622483	hsa-miR-149	CLIP-seq
MIRT2102875	hsa-miR-17	CLIP-seq
MIRT2102876	hsa-miR-20a	CLIP-seq
MIRT2102877	hsa-miR-20b	CLIP-seq
MIRT2102878	hsa-miR-296-5p	CLIP-seq
MIRT2102879	hsa-miR-3116	CLIP-seq
MIRT2327224	hsa-miR-3117-5p	CLIP-seq
MIRT2622484	hsa-miR-3144-3p	CLIP-seq
MIRT2622485	hsa-miR-3148	CLIP-seq
MIRT2622486	hsa-miR-3156-5p	CLIP-seq
MIRT2622487	hsa-miR-3157-3p	CLIP-seq
MIRT2622488	hsa-miR-3192	CLIP-seq
MIRT2622489	hsa-miR-3202	CLIP-seq
MIRT2102880	hsa-miR-3613-3p	CLIP-seq
MIRT2102881	hsa-miR-4263	CLIP-seq
MIRT2622490	hsa-miR-4264	CLIP-seq
MIRT2102882	hsa-miR-4290	CLIP-seq
MIRT2622491	hsa-miR-4314	CLIP-seq
MIRT2622492	hsa-miR-4646-5p	CLIP-seq
MIRT1347455	hsa-miR-4667-3p	CLIP-seq
MIRT2327225	hsa-miR-4679	CLIP-seq
MIRT2622493	hsa-miR-4797-3p	CLIP-seq
MIRT2102883	hsa-miR-515-3p	CLIP-seq
MIRT2102884	hsa-miR-519d	CLIP-seq
MIRT2102885	hsa-miR-519e	CLIP-seq
MIRT2622494	hsa-miR-520d-5p	CLIP-seq
MIRT2622495	hsa-miR-524-5p	CLIP-seq
MIRT2102886	hsa-miR-550a	CLIP-seq
MIRT2622496	hsa-miR-619	CLIP-seq
MIRT2102887	hsa-miR-625	CLIP-seq
MIRT2102888	hsa-miR-627	CLIP-seq
MIRT2102889	hsa-miR-661	CLIP-seq
MIRT2102890	hsa-miR-760	CLIP-seq
MIRT2622497	hsa-miR-874	CLIP-seq
MIRT2622498	hsa-miR-875-5p	CLIP-seq
MIRT2102891	hsa-miR-93	CLIP-seq
MIRT2622499	hsa-miR-935	CLIP-seq
MIRT2622500	hsa-miR-942	CLIP-seq
MIRT2102869	hsa-miR-106a	CLIP-seq
MIRT2102870	hsa-miR-106b	CLIP-seq
MIRT2102871	hsa-miR-1237	CLIP-seq
MIRT2102872	hsa-miR-1248	CLIP-seq
MIRT2102873	hsa-miR-1254	CLIP-seq
MIRT2102874	hsa-miR-1264	CLIP-seq
MIRT2622483	hsa-miR-149	CLIP-seq
MIRT2102875	hsa-miR-17	CLIP-seq
MIRT2102876	hsa-miR-20a	CLIP-seq
MIRT2102877	hsa-miR-20b	CLIP-seq
MIRT2102878	hsa-miR-296-5p	CLIP-seq
MIRT2102879	hsa-miR-3116	CLIP-seq
MIRT2327224	hsa-miR-3117-5p	CLIP-seq
MIRT2622484	hsa-miR-3144-3p	CLIP-seq
MIRT2622485	hsa-miR-3148	CLIP-seq
MIRT2622486	hsa-miR-3156-5p	CLIP-seq
MIRT2622487	hsa-miR-3157-3p	CLIP-seq
MIRT2622488	hsa-miR-3192	CLIP-seq
MIRT2622489	hsa-miR-3202	CLIP-seq
MIRT2102880	hsa-miR-3613-3p	CLIP-seq
MIRT2102881	hsa-miR-4263	CLIP-seq
MIRT2622490	hsa-miR-4264	CLIP-seq
MIRT2102882	hsa-miR-4290	CLIP-seq
MIRT2622491	hsa-miR-4314	CLIP-seq
MIRT2622492	hsa-miR-4646-5p	CLIP-seq
MIRT1347455	hsa-miR-4667-3p	CLIP-seq
MIRT2327225	hsa-miR-4679	CLIP-seq
MIRT2622493	hsa-miR-4797-3p	CLIP-seq
MIRT2102883	hsa-miR-515-3p	CLIP-seq
MIRT2102884	hsa-miR-519d	CLIP-seq
MIRT2102885	hsa-miR-519e	CLIP-seq
MIRT2622494	hsa-miR-520d-5p	CLIP-seq
MIRT2622495	hsa-miR-524-5p	CLIP-seq
MIRT2102886	hsa-miR-550a	CLIP-seq
MIRT2622496	hsa-miR-619	CLIP-seq
MIRT2102887	hsa-miR-625	CLIP-seq
MIRT2102888	hsa-miR-627	CLIP-seq
MIRT2102889	hsa-miR-661	CLIP-seq
MIRT2102890	hsa-miR-760	CLIP-seq
MIRT2622497	hsa-miR-874	CLIP-seq
MIRT2622498	hsa-miR-875-5p	CLIP-seq
MIRT2102891	hsa-miR-93	CLIP-seq
MIRT2622499	hsa-miR-935	CLIP-seq
MIRT2622500	hsa-miR-942	CLIP-seq

Show/Hide all(56)

GO ID	Ontology	Definition	Evidence	Reference
GO:0000900	Function	Translation repressor activity, mRNA regulatory element binding	IBA	21873635
GO:0002082	Process	Regulation of oxidative phosphorylation	IBA	21873635
GO:0002082	Process	Regulation of oxidative phosphorylation	IMP	29364879, 29452640
GO:0003682	Function	Chromatin binding	IDA	18063578
GO:0004372	Function	Glycine hydroxymethyltransferase activity	IBA	21873635
GO:0004372	Function	Glycine hydroxymethyltransferase activity	IDA	8505317, 17482557, 24075985, 25619277, 29180469, 29364879, 29452640
GO:0005515	Function	Protein binding	IPI	25416956, 25902260, 26871637, 29892012, 32296183
GO:0005634	Component	Nucleus	IBA	21873635
GO:0005634	Component	Nucleus	IDA	24075985
GO:0005737	Component	Cytoplasm	IBA	21873635
GO:0005737	Component	Cytoplasm	IDA	24075985
GO:0005739	Component	Mitochondrion	IDA	17482557, 24075985
GO:0005743	Component	Mitochondrial inner membrane	IBA	21873635
GO:0005743	Component	Mitochondrial inner membrane	IDA	21876188
GO:0005743	Component	Mitochondrial inner membrane	TAS
GO:0005758	Component	Mitochondrial intermembrane space	IEA
GO:0005759	Component	Mitochondrial matrix	IBA	21873635
GO:0005759	Component	Mitochondrial matrix	IDA	11516159, 21876188
GO:0005829	Component	Cytosol	IBA	21873635
GO:0006544	Process	Glycine metabolic process	IDA	25619277, 29180469
GO:0006563	Process	L-serine metabolic process	IDA	25619277, 29180469
GO:0006564	Process	L-serine biosynthetic process	IEA
GO:0006565	Process	L-serine catabolic process	IBA	21873635
GO:0006730	Process	One-carbon metabolic process	IBA	21873635
GO:0006730	Process	One-carbon metabolic process	IDA	11516159, 29180469, 29364879, 29452640
GO:0008270	Function	Zinc ion binding	IBA	21873635
GO:0008284	Process	Positive regulation of cell population proliferation	IEA
GO:0008732	Function	L-allo-threonine aldolase activity	IEA
GO:0009113	Process	Purine nucleobase biosynthetic process	IBA	21873635
GO:0015630	Component	Microtubule cytoskeleton	IDA
GO:0017148	Process	Negative regulation of translation	IEA
GO:0019264	Process	Glycine biosynthetic process from serine	IBA	21873635
GO:0030170	Function	Pyridoxal phosphate binding	IBA	21873635
GO:0030170	Function	Pyridoxal phosphate binding	IDA	25619277
GO:0034340	Process	Response to type I interferon	IBA	21873635
GO:0034340	Process	Response to type I interferon	IDA	24075985
GO:0035999	Process	Tetrahydrofolate interconversion	IBA	21873635
GO:0035999	Process	Tetrahydrofolate interconversion	IEA
GO:0042645	Component	Mitochondrial nucleoid	IDA	18063578
GO:0042803	Function	Protein homodimerization activity	IBA	21873635
GO:0046653	Process	Tetrahydrofolate metabolic process	IBA	21873635
GO:0046653	Process	Tetrahydrofolate metabolic process	IDA	24075985, 25619277
GO:0046655	Process	Folic acid metabolic process	IBA	21873635
GO:0046655	Process	Folic acid metabolic process	TAS
GO:0048027	Function	MRNA 5'-UTR binding	IBA	21873635
GO:0050897	Function	Cobalt ion binding	IBA	21873635
GO:0051262	Process	Protein tetramerization	IDA	25619277
GO:0051289	Process	Protein homotetramerization	IBA	21873635
GO:0051289	Process	Protein homotetramerization	IDA	29180469
GO:0070062	Component	Extracellular exosome	HDA	19056867, 20458337
GO:0070129	Process	Regulation of mitochondrial translation	IMP	29364879, 29452640
GO:0070536	Process	Protein K63-linked deubiquitination	IMP	24075985
GO:0070552	Component	BRISC complex	IBA	21873635
GO:0070552	Component	BRISC complex	IDA	24075985
GO:0070905	Function	Serine binding	IBA	21873635
GO:1903715	Process	Regulation of aerobic respiration	IMP	29364879, 29452640

MIM	HGNC	e!Ensembl
138450	10852	ENSG00000182199

Protein

UniProt ID

P34897

Protein name

Serine hydroxymethyltransferase, mitochondrial (SHMT) (EC 2.1.2.1) (Glycine hydroxymethyltransferase) (Serine methylase)

Protein function

Catalyzes the cleavage of serine to glycine accompanied with the production of 5,10-methylenetetrahydrofolate, an essential intermediate for purine biosynthesis (PubMed:24075985, PubMed:25619277, PubMed:29364879, PubMed:33015733). Serine provide

PDB

4PVF , 5V7I , 5X3V , 6DK3 , 6H3C , 6M5O , 6QVG , 6QVL , 6R8F , 7BYI , 8AQL , 8FJT , 8FJU , 8GKS , 8GKT , 8GKU , 8GKW , 8GKY , 8GKZ , 8QI7 , 8SSJ , 8T4O , 8T4P , 8TLC , 9BOX

Family and domains

Pfam

Accession	ID	Position in sequence	Description	Type
PF00464	SHMT	49 → 448	Serine hydroxymethyltransferase	Domain

Sequence

MLYFSLFWAARPLQRCGQLVRMAIRAQHSNAAQTQTGEANRGWTGQESLSDSDPEMWELL
QREKDRQCRGLELIASENFCSRAALEALGSCLNNKYSEGYPGKRYYGGAEVVDEIELLCQ
RRALEAFDLDPAQWGVNVQPYSGSPANLAVYTALLQPHDRIMGLDLPDGGHLTHGYMSDV
KRISATSIFFESMPYKLNPKTGLIDYNQLALTARLFRPRLIIAGTSAYARLIDYARMREV
CDEVKAHLLADMAHISGLVAAKVIPSPFKHADIVTTTTHKTLRGARSGLIFYRKGVKAVD
PKTGREIPYTFEDRINFAVFPSLQGGPHNHAIAAVAVALKQACTPMFREYSLQVLKNARA
MADALLERGYSLVSGGTDNHLVLVDLRPKGLDGARAERVLELVSITANKNTCPGDRSAIT
PGGLRLGAPALTSRQFREDDFRRVVDFIDEGVNIGLEVKSKTAKLQDFKSFLLKDSETSQ
RLANLRQRVEQFARAFPMPGFDEH

Sequence length

504

Interactions

View interactions

	KEGG		Reactome
	Glycine, serine and threonine metabolism Glyoxylate and dicarboxylate metabolism One carbon pool by folate Metabolic pathways Carbon metabolism Biosynthesis of amino acids Biosynthesis of cofactors Antifolate resistance Folate transport and metabolism		Metabolism of folate and pterines

Associated diseases

Show/Hide Causal Diseases (1)

Causal
Disease name	Disease term	dbSNP ID	References
Lung carcinoma	Non-Small Cell Lung Carcinoma	rs1805076, rs121909071, rs121913530, rs112445441, rs121913529, rs121913535, rs121913297, rs121913279, rs104886003, rs397516975, rs11554290, rs121913364, rs121913351, rs121913369, rs121913355, rs121912470, rs121913273, rs121913281, rs121913348, rs727503093, rs121913353, rs397516890, rs397516896, rs121913378, rs397516897, rs397516977, rs397516978, rs397516979, rs397516980, rs397516981, rs397516982, rs121913240, rs17851045, rs397517086, rs121913428, rs397517094, rs397517098, rs397517106, rs121913465, rs397517108, rs397517111, rs397517112, rs397517114, rs397517116, rs1554350366, rs397517127, rs397517200, rs397517202, rs121913283, rs121913370, rs121913357, rs727503106, rs121913238, rs727503108, rs397517040, rs397516976, rs1555618025, rs1057519729, rs1584238193	26482881

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